SMTL ID : 4bd0.1

X-ray structure of a perdeuterated Toho-1 R274N R276N double mutant Beta-lactamase in complex with a fully deuterated boronic acid (BZB)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.21 Å

Oligo State

monomer

Ligands

1 x BZB: BENZO[B]THIOPHENE-2-BORONIC ACID(Covalent)

BZB.1: 13 residues within 4Å: Chain A: C.42, S.43, K.46, N.77, Y.78, S.103, N.105, P.140, N.143, K.207, G.209, S.210 Ligands: SO4.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:N.77, A:Y.78 Hydrogen bonds: A:S.43, A:S.103, A:S.210, A:S.210 Water bridges: A:N.143, A:K.207

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: S.43, S.103, K.207, T.208, G.209, S.210 Ligands: BZB.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.103, A:S.210 Water bridges: A:K.207 Salt bridges: A:K.46, A:K.207 SO4.3: 6 residues within 4Å: Chain A: W.202, P.224, E.225, N.226, H.227, F.261 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.202, A:E.225, A:N.226, A:N.226, A:F.261 Salt bridges: A:H.227 SO4.4: 3 residues within 4Å: Chain A: R.137, I.146, R.151 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.137, A:R.137 Salt bridges: A:R.151 SO4.5: 3 residues within 4Å: Chain A: K.55, K.170, A.171 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:A.171 Water bridges: A:K.55, A:K.55, A:K.55, A:K.55, A:K.55, A:K.55, A:K.55, A:K.55 Salt bridges: A:K.55 SO4.6: 3 residues within 4Å: Chain A: Y.213, E.240, Q.241 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.241 SO4.7: 3 residues within 4Å: Chain A: V.181, T.182, K.185 5 PLIP interactions: 5 interactions with chain A Water bridges: A:T.182, A:T.182, A:K.185, A:K.185 Salt bridges: A:K.185

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tomanicek, S.J. et al., Neutron and X-Ray Crystal Structures of a Perdeuterated Enzyme Inhibitor Complex Reveal the Catalytic Proton Network of the Toho-1 Beta-Lactamase for the Acylation Reaction. J.Biol.Chem. (2013)

Release Date

2013-01-09

Peptides

BETA-LACTAMASE TOHO-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

BETA-LACTAMASE TOHO-1

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